Results 41 to 50 of about 4,504,319 (408)
Contextual Multiple Sequence Alignment [PDF]
BioMed Research International, 2005 In a recently proposed contextual alignment model, efficient algorithms exist for global and local pairwise alignment of protein sequences. Preliminary results obtained for biological data are very promising. Our main motivation was to adopt the idea of context dependency to the multiple‐alignment setting.
Rafał Otto, Anna Gambin
openaire +3 more sources
Bootstrapping Lexical Choice via Multiple-Sequence Alignment [PDF]
, 2002 An important component of any generation system is the mapping dictionary, a lexicon of elementary semantic expressions and corresponding natural language realizations.
Barzilay, Regina, Lee, Lillian
core +7 more sources
Molecular biology and evolution, 2010 We present SeaView version 4, a multiplatform program designed to facilitate multiple alignment and phylogenetic tree building from molecular sequence data through the use of a graphical user interface. SeaView version 4 combines all the functions of the
M. Gouy, Stéphane Guindon, O. Gascuel
semanticscholar +1 more source
On the Complexity of Sequence to Graph Alignment [PDF]
Journal of Computational Biology, 2019 AbstractAvailability of extensive genetics data across multiple individuals and populations is driving the growing importance of graph based reference representations. Aligning sequences to graphs is a fundamental operation on several types of sequence graphs (variation graphs, assembly graphs, pan-genomes, etc.) and their biological applications ...
Jain, Chirag +3 more
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Correctness by Construction for Pairwise Sequence Alignment Algorithm in Bio-Sequence
Tehnički Vjesnik, 2023 Pairwise sequence alignment is a classical problem in bioinformatics, aiming at finding the similarity between two sequences, which is important for discovering functional, structural and evolutionary information in biological sequences.
Haihe Shi +3 more
doaj +1 more source
Multiple sequence alignment with the Clustal series of programs
Nucleic Acids Res., 2003 The Clustal series of programs are widely used in molecular biology for the multiple alignment of both nucleic acid and protein sequences and for preparing phylogenetic trees.
Chenna Ramu +6 more
semanticscholar +1 more source
Sequence Alignment on Directed Graphs [PDF]
Journal of Computational Biology, 2017 AbstractGenomic variations in a reference collection are naturally represented as genome variation graphs. Such graphs encode common subsequences as vertices and the variations are captured using additional vertices and directed edges. The resulting graphs are directed graphs possibly with cycles.
Vaddadi, Kavya +3 more
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An Introductory Guide to Aligning Networks Using SANA, the Simulated Annealing Network Aligner. [PDF]
, 2019 Sequence alignment has had an enormous impact on our understanding of biology, evolution, and disease. The alignment of biological networks holds similar promise.
A Chatr-Aryamontri +45 more
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Recent developments in the MAFFT multiple sequence alignment program
Briefings Bioinform., 2008 The accuracy and scalability of multiple sequence alignment (MSA) of DNAs and proteins have long been and are still important issues in bioinformatics. To rapidly construct a reasonable MSA, we developed the initial version of the MAFFT program in 2002 ...
K. Katoh, H. Toh
semanticscholar +1 more source
Testing robustness of relative complexity measure method constructing robust phylogenetic trees for Galanthus L. Using the relative complexity measure [PDF]
, 2013 Background: Most phylogeny analysis methods based on molecular sequences use multiple alignment where the quality of the alignment, which is dependent on the alignment parameters, determines the accuracy of the resulting trees.
Bakis, Yasin +11 more
core +2 more sources